Governor Graco Ramirez ordered the State Security Commission to take charge charge of police in 15 municipalities of Morelos state, including the capital, Cuernavaca, and Temixco, where the slain mayor served.
Gisela Mota, 33, a left-of-center former member of Congress, was gunned down on Saturday, barely 24 hours after taking her oath of office in Temixco, which is about 90 kilometres south of Mexico City.
Two suspected gunmen were killed and three were detained, including a minor.
Mota had vowed to clean up crime when she took office. The governor said she had agreed to back a "single command" coordination scheme that groups state and municipal police.
Her murder "is a message and a clear threat for the mayors who recently took office to not accept the police coordination scheme that we have supported and that is being built at a national level," Ramirez told a news conference.
Morelos has around 30 municipalities and about half have not ratified the single command.
Ramirez has clashed with the new mayor of Cuernavaca, former Mexico football star Cuauhtemoc Blanco, over the single command.
Blanco has decided the suspend the scheme, saying crime has risen despite its existence and proposing to beef up the municipal force instead.
Several mayors have been murdered in Mexico in recent years amid a bloody drug war that has cost tens of thousands of lives in the past decade.
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